Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A17 F172 I0 R1	42	33.2	716278	96.8%	693357	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,474,639	C→G	100%	A9129P (GCA→CCA)	ebh ←	extracellular matrix binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,474,639	0	C	G	100.0%	97.9 / NA	31	A9129P (GCA→CCA)	ebh	extracellular matrix binding protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base G (10/21); total (10/21)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTTAAATCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGCTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTCATT  >  CP000730/1474508‑1474774

tttAATTCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCa                                                                                                                                 <  1:339839/140‑1 (MQ=255)

   aaaTCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTAATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTGTTGCTTTTAAAATATTTTGAAGTGGTTGATCCAAtt                                                                                                                              >  1:70264/1‑140 (MQ=255)

     aTCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTTGATGTTATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACttgt                                                                                                                            <  1:308077/140‑1 (MQ=255)

         aTCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAACTGGTTGATCAACTTGTTCCt                                                                                                                        >  2:46472/1‑140 (MQ=255)

              gttgAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAATATATTTTGAAGTGGTTGATCGACTTGTTGCTTATTc                                                                                                                   >  1:282196/1‑140 (MQ=255)

                                  ttCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACAtt                                                                                               <  1:227437/140‑1 (MQ=255)

                                    cAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACAtttt                                                                                             >  2:62366/1‑140 (MQ=255)

                                     aaTTGGTCGATGTCAGGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGCTCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTtc                                                                                            <  1:197016/140‑1 (MQ=255)

                                        tGGTCTATGTCATTTTTACCATTTTTTTTAGCAATTTCTACACTTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTtcagc                                                                                         <  1:107557/140‑1 (MQ=255)

                                        tGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTtcagc                                                                                         <  2:309667/140‑1 (MQ=255)

                                           ttgATGTCATGTTTACTATTTTTTTTAGCAATTGCTACACCTTCATCACCATTTAATGTTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTtcagcatc                                                                                      <  2:166962/138‑1 (MQ=255)

                                                gtactGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCaa                                                                                 <  1:52018/136‑1 (MQ=255)

                                                    tGTTTACCATTTGTTTTAGAAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTtcagcatcagctctccg                                                                             <  2:3491/140‑7 (MQ=255)

                                                     gTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCt                                                                            <  1:269656/140‑1 (MQ=255)

                                                     gTTTACCATTTGTTTTAGCAAGTGCTACACGATCTTCACAATATAATTTTGTTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCt                                                                            <  2:74108/140‑1 (MQ=255)

                                                     gTTTACCAATTGTTTTAGGAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCt                                                                            <  1:290473/140‑1 (MQ=255)

                                                       ttACCATTTTTTTTGGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTGAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTg                                                                          <  1:54145/140‑1 (MQ=255)

                                                         aCCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGtt                                                                        >  1:61139/1‑140 (MQ=255)

                                                                    tAGCAAGTGCTACACTTTCATCACCATTTAATTCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCAttt                                                             <  2:163183/140‑1 (MQ=255)

                                                                      gCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTg                                                           >  2:22418/1‑140 (MQ=255)

                                                                                            cATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTtgtgtg                                     <  2:313559/140‑1 (MQ=255)

                                                                                                  aTGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTGGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCt                               <  2:233981/140‑1 (MQ=255)

                                                                                                       tGTTTTGCATTTAAAATATTTTGAAGTGGTTGCTCCACTTGCTGCTTATTCGCATTTTGTTTTAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGt                          <  1:46472/140‑1 (MQ=255)

                                                                                                       tGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCAACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGt                          <  1:173034/140‑1 (MQ=255)

                                                                                                         ttttGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGGATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGttt                        <  1:157516/140‑1 (MQ=255)

                                                                                                             gCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAGTACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTc                    >  1:244375/1‑140 (MQ=255)

                                                                                                             gCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGccc                    >  2:16535/1‑138 (MQ=255)

                                                                                                               aTTTAAAATATTTTAAAGTGGTTAATCCACTTTTTGCTTACTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCaa                  <  1:152121/140‑1 (MQ=255)

                                                                                                                          tttGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCAtct       >  1:328039/1‑138 (MQ=255)

                                                                                                                             gAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTCa    >  1:87360/1‑140 (MQ=255)

                                                                                                                               aGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTCAtt  <  1:44832/140‑1 (MQ=255)

TTTAAATCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGCTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTCATT  >  CP000730/1474508‑1474774

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A